MmuINT0124862 @ mm9
Intron Retention
Gene
ENSMUSG00000039457 | Ppl
Description
periplakin [Source:MGI Symbol;Acc:MGI:1194898]
Coordinates
chr16:5102387-5102771:-
Coord C1 exon
chr16:5102649-5102771
Coord A exon
chr16:5102534-5102648
Coord C2 exon
chr16:5102387-5102533
Length
115 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GTGCTGCGCTACTCTTACAGGAC
3' ss Score
9.45
Exon sequences
Seq C1 exon
TTTCACAAAGACATGAAGGATGCTCAGGAGCTGCTACGCAAGGTGGACTCAGACTTGAACCAGAAATATAGCCCTGACTTCAAAGACCGGTATCAGATAGAGCTGTTGCTTCGGGAACTGGAT
Seq A exon
GTGAGTGGCGGCATGTGAGGTTGCCCCAGACCTGAGCAGATGTAGCTAGGGCCTGCCTCGTGCTCCCCCTGGGTCGTGCAAGCTGGCCTTACCTGGTGCTGCGCTACTCTTACAG
Seq C2 exon
GACCAGGAGAAGGCTCTGGACAAGTATGAGGATGTGGTGCGAGGGCTGCAGAGGCGAGGGCAGCAAGTGGTGCCACTCAAGTACCGCCGCGAGACGCCGCTCAAGCCCATCCCTGTGGAGGCTCTCTGTGACTTTGAGAGTGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039457-Ppl:NM_008909:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.049 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(50.6=100)
A:
NA
C2:
PF0043516=Spectrin=PD(40.5=65.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACATGAAGGATGCTCAGGAG
R:
AGTCACAGAGAGCCTCCACAG
Band lengths:
248-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: